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[189668_at]

Description F22D3.1 /REP_DB=WormBase Gene ID /WP=CE27137 /GEN=ceh-38 /GB=AAK31496.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=homeobox protein
Cluster 6grp_highest_10_10 > 65      6grp_high1_10_10 > 76      4grp_highest_8_8 > 52      4grp_high_8_8 > 24      6grp_highest_nonorm > 84      6grp_total > 56      4grp_total > 39      6grp_cgc > 37      6grp_high1_sub > Da      6grp_cgc_sub > Cu      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 462
1 2 3 4 range
A 891.9
(3)
P 		490.2
(-3)
P 		487.4
(-3)
P 		532
(-2.3)
P 		405
B 938
(3)
P 		485.6
(-3)
P 		486.1
(-3)
P 		623.8
(-1.2)
P 		452
C 909.8
(3)
P 		523.8
(-2.3)
P 		476.1
(-3)
P 		640.4
(-0.7)
P 		434
avr 913.2
(3) 		499.9
(-2.8) 		483.2
(-3) 		598.7
(-1.4) 		430

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 406
1 2 3 4 5 6 range
A 536.4
(-1.9)
P 		869.5
(3)
P 		463.3
(-3)
P 		562.5
(-1.5)
P 		503.1
(-2.4)
P 		847.9
(2.7)
P 		406
B 555.7
(-2.1)
P 		604.5
(-0.8)
P 		567.6
(-1.7)
P 		589.8
(-1.2)
P 		519.3
(-3)
P 		749.5
(3)
P 		230
C 542.7
(-2.9)
P 		706.6
(0.4)
P 		661.8
(-0.5)
P 		590.5
(-1.9)
P 		535.6
(-3)
P 		833.9
(3)
P 		298
avr 544.9
(-2.5) 		726.9
(1.3) 		564.2
(-2.1) 		580.9
(-1.7) 		519.3
(-3) 		810.4
(3) 		291
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 247
1 2 3 4 range
A 324.7
(3)
P 		106.4
(-2.3)
P 		127.4
(-1.8)
P 		77.9
(-3)
P 		247
B 299.1
(3)
P 		119.9
(-2.8)
P 		112.6
(-3)
P 		132.9
(-2.3)
P 		187
C 301.2
(3)
P 		150.6
(-1.7)
P 		165.9
(-1.2)
P 		108
(-3)
P 		193
avr 308.3
(3) 		125.6
(-2.4) 		135.3
(-2.1) 		106.3
(-3) 		202

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 210
1 2 3 4 5 6 range
A 98.9
(-3)
P 		309.2
(3)
P 		100.9
(-2.9)
P 		142.7
(-1.8)
P 		151.8
(-1.5)
P 		206.4
(0.1)
P 		210
B 193.4
(-0.6)
P 		201.2
(-0.3)
P 		137.8
(-3)
P 		156.2
(-2.2)
P 		211
(0.1)
P 		279.5
(3)
P 		142
C 201.2
(0.1)
P 		215.6
(0.6)
P 		168.4
(-1.1)
P 		118.8
(-3)
P 		173.3
(-1)
P 		279.1
(3)
P 		160
avr 164.5
(-1.6) 		242
(2.3) 		135.7
(-3) 		139.2
(-2.8) 		178.7
(-0.8) 		255
(3) 		119
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 189668_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5640
Sequence Type Exemplar sequence
Representative Public ID F22D3.1 NCBI
Target Description F22D3.1 /REP_DB=WormBase Gene ID /WP=CE27137 /GEN=ceh-38 /GB=AAK31496.1 /SUBMIT=ST.LOUIS /CHR=2 /FEA=Sanger Annotation /DEF=homeobox protein
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_171016(11), NM_171852(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_171016 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-38) (ceh-38) mRNA, complete cds. 11/11 None
NM_171852 NCBI Caenorhabditis elegans C.Elegans Homeobox family member (ceh-38) (ceh-38) mRNA, complete cds. 11/11 None
GENEFINDER00000022825 ENSEMBL cdna:GeneFinder chromosome:CEL140:II:6952001:6954660:1 11/11 None
F22D3.1b ENSEMBL cdna:known chromosome:CEL140:II:6951571:6955326:1 gene:F22D3.1 11/11 A 
F22D3.1a ENSEMBL cdna:known chromosome:CEL140:II:6952001:6954660:1 gene:F22D3.1 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000022822 7/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:6951996-6954656(+) 97.47 100.0
Public Domain and Genome References
Ensembl F22D3.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAL27244 C.elegans homeobox protein 38, isoform b [Caenorhabditis elegans] ref|NP_741017.1| C.Elegans Homeobox family member (ceh-38) [Caenorhabditis elegans] sp|Q19720|HM38_CAEEL Homeobox protein ceh-38 0.0
blast T16136 hypothetical protein F22D3.1 - Caenorhabditis elegans 0.0
blast AAK31496 C.elegans homeobox protein 38, isoform a [Caenorhabditis elegans] ref|NP_741018.1| C.Elegans Homeobox family member (ceh-38) [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 5.00000023748726E-4
scop a.4.1.Homeodomain All alpha proteins; DNA/RNA-binding 3-helical bundle; Homeodomain-like; Homeodomain 6.00000028498471E-4
Pfam IPR001356 EMBL-EBI Homeobox 5.1E-8
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 1.2E-57
Pfam IPR001356 EMBL-EBI Homeobox 5.1E-8
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 1.2E-57
Pfam IPR001356 EMBL-EBI Homeobox 5.1E-8
Pfam IPR003350 EMBL-EBI Homeodomain protein CUT 1.2E-57
Sequence
Target Sequence 
>C. ELEGANS:189668_AT
aagcgtacacttcaagcaatcttcaaagaaactcaacgtccatctcgggaaatgcaacaa
acaattgctgagcatcttcgtcttgatctttccacagttgccaacttcttcatgaatgca
cgtcgtagaagtcgactcggtggaaacattgatgaaccgacgcctttccagcaggtgaaa
aacatcagtccgccacctgttggggatacatcagatgcactgttgaacggggatgaccat
gttccactactcaacacggtgatggcggaaatgtataaagaaggtgcaattgcaacatcg
aatcattctgctgaacaacgagaaatgattgaacgtggatttggagtatcaattccgggt
cctagtcattctggtgaactt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAGCGTACACTTCAAGCAATCTTCA 487 145 1336 Antisense
AAACTCAACGTCCATCTCGGGAAAT 251 127 1364 Antisense
ATCTTTCCACAGTTGCCAACTTCTT 574 31 1421 Antisense
GCCAACTTCTTCATGAATGCACGTC 678 277 1435 Antisense
AACATTGATGAACCGACGCCTTTCC 12 137 1480 Antisense
GGTGAAAAACATCAGTCCGCCACCT 346 501 1509 Antisense
TCCGCCACCTGTTGGGGATACATCA 336 595 1524 Antisense
AACGGGGATGACCATGTTCCACTAC 307 143 1561 Antisense
GTTCCACTACTCAACACGGTGATGG 192 441 1576 Antisense
GAGTATCAATTCCGGGTCCTAGTCA 644 397 1679 Antisense
GGGTCCTAGTCATTCTGGTGAACTT 587 497 1692 Antisense
Sequence Source Affymetrix Proprietary Database